noone@mail.com Analysis of Dieting study 16S data % Fri Sep 7 05:46:18 2018

(1.2.1.1.9) Plots of Abundance.

Plots are shown with relation to various combinations of meta data variables and in different graphical representations. Lots of plots here.

(1.2.1.1.9.2) Iterating over all combinations of grouping variables
(1.2.1.1.9.2.1) Grouping variables Sample.type
(1.2.1.1.9.2.2) Iterating over Abundance. profile sorting order
(1.2.1.1.9.2.2.1) Abundance. profile sorting order: average abundance
(1.2.1.1.9.2.2.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.2.1.1.9.2.2.2.1) faceted plots. Iterating over orientation and, optionally, scaling
(1.2.1.1.9.2.2.2.1.1) Abundance. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.2.1.1.9.2.2.2.1.1.0) Table 74. Data table used for plots. Data grouped by Sample.type. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.2.1.1.9.2.2.2.1.1.0-323f511bee.1.2.1.1.9.2.2.2.1.1.csv

.record.id Sample.type feature Abundance
SB1 control Bacteroidetes 0.6847011
SB10 control Bacteroidetes 0.5636549
SB11 patient Bacteroidetes 0.7549107
SB12 control Bacteroidetes 0.0000000
SB13 control Bacteroidetes 0.2200704
SB14 control Bacteroidetes 0.7867457
SB15 control Bacteroidetes 0.5339906
SB16 patient Bacteroidetes 0.8191974
SB17 patient Bacteroidetes 0.8667524
SB18 patient Bacteroidetes 0.8869878
SB19 control Bacteroidetes 0.2319887
SB21 control Bacteroidetes 0.1707756
SB22 patient Bacteroidetes 0.6115163
SB23 patient Bacteroidetes 0.7781065
SB24 control Bacteroidetes 0.7198795
SB25 control Bacteroidetes 0.6155158
SB26 control Bacteroidetes 0.5052377
SB28 patient Bacteroidetes 0.6904013
SB29 patient Bacteroidetes 0.9046076
SB3 control Bacteroidetes 0.4111917
SB30 patient Bacteroidetes 0.8563497
SB31 control Bacteroidetes 0.6462271
SB32 control Bacteroidetes 0.4116736
SB33 control Bacteroidetes 0.8226714
SB34 patient Bacteroidetes 0.7837908
SB35 patient Bacteroidetes 0.9714974
SB36 patient Bacteroidetes 0.8668189
SB38 patient Bacteroidetes 0.9344382
SB39 patient Bacteroidetes 0.5561997
SB4 patient Bacteroidetes 0.9321676
SB40 control Bacteroidetes 0.5376651
SB41 patient Bacteroidetes 0.9297539
SB42 patient Bacteroidetes 0.6381524
SB43 patient Bacteroidetes 0.8861386
SB44 patient Bacteroidetes 0.8253707
SB45 control Bacteroidetes 0.8860391
SB5 patient Bacteroidetes 0.0982678
SB6 patient Bacteroidetes 0.8249907
SB7 control Bacteroidetes 0.4787347
SB8 patient Bacteroidetes 0.5680175
SB9 patient Bacteroidetes 0.0643696
SB1 control Firmicutes 0.1777677
SB10 control Firmicutes 0.3690709
SB11 patient Firmicutes 0.2004464
SB12 control Firmicutes 0.4655685
SB13 control Firmicutes 0.6870599
SB14 control Firmicutes 0.1964930
SB15 control Firmicutes 0.4376724
SB16 patient Firmicutes 0.1419115
SB17 patient Firmicutes 0.0873312
SB18 patient Firmicutes 0.1035274
SB19 control Firmicutes 0.7000176
SB21 control Firmicutes 0.7545438
SB22 patient Firmicutes 0.3619962
SB23 patient Firmicutes 0.2169177
SB24 control Firmicutes 0.2306368
SB25 control Firmicutes 0.3429241
SB26 control Firmicutes 0.4700510
SB28 patient Firmicutes 0.0664831
SB29 patient Firmicutes 0.0910727
SB3 control Firmicutes 0.5150259
SB30 patient Firmicutes 0.1129618
SB31 control Firmicutes 0.3329670
SB32 control Firmicutes 0.5380090
SB33 control Firmicutes 0.1656713
SB34 patient Firmicutes 0.1926574
SB35 patient Firmicutes 0.0272983
SB36 patient Firmicutes 0.0711568
SB38 patient Firmicutes 0.0457112
SB39 patient Firmicutes 0.2222222
SB4 patient Firmicutes 0.0630087
SB40 control Firmicutes 0.3980721
SB41 patient Firmicutes 0.0667050
SB42 patient Firmicutes 0.2489554
SB43 patient Firmicutes 0.0789167
SB44 patient Firmicutes 0.1639209
SB45 control Firmicutes 0.0789706
SB5 patient Firmicutes 0.7350474
SB6 patient Firmicutes 0.1345940
SB7 control Firmicutes 0.5021584
SB8 patient Firmicutes 0.4124769
SB9 patient Firmicutes 0.8985233
SB1 control Proteobacteria 0.1211639
SB10 control Proteobacteria 0.0544154
SB11 patient Proteobacteria 0.0049107
SB12 control Proteobacteria 0.3135296
SB13 control Proteobacteria 0.0642606
SB14 control Proteobacteria 0.0110882
SB15 control Proteobacteria 0.0053778
SB16 patient Proteobacteria 0.0223417
SB17 patient Proteobacteria 0.0415434
SB18 patient Proteobacteria 0.0056413
SB19 control Proteobacteria 0.0139158
SB21 control Proteobacteria 0.0190750
SB22 patient Proteobacteria 0.0122841
SB23 patient Proteobacteria 0.0021517
SB24 control Proteobacteria 0.0196500
SB25 control Proteobacteria 0.0110827
SB26 control Proteobacteria 0.0021488
SB28 patient Proteobacteria 0.2423289
SB29 patient Proteobacteria 0.0003600
SB3 control Proteobacteria 0.0163731
SB30 patient Proteobacteria 0.0002524
SB31 control Proteobacteria 0.0093773
SB32 control Proteobacteria 0.0410280
SB33 control Proteobacteria 0.0081544
SB34 patient Proteobacteria 0.0219067
SB35 patient Proteobacteria 0.0000000
SB36 patient Proteobacteria 0.0605023
SB38 patient Proteobacteria 0.0151156
SB39 patient Proteobacteria 0.0186795
SB4 patient Proteobacteria 0.0021103
SB40 control Proteobacteria 0.0232060
SB41 patient Proteobacteria 0.0011951
SB42 patient Proteobacteria 0.0173972
SB43 patient Proteobacteria 0.0329062
SB44 patient Proteobacteria 0.0013729
SB45 control Proteobacteria 0.0130442
SB5 patient Proteobacteria 0.1580782
SB6 patient Proteobacteria 0.0107527
SB7 control Proteobacteria 0.0124549
SB8 patient Proteobacteria 0.0131159
SB9 patient Proteobacteria 0.0064370
SB1 control Unclassified_Bacteria 0.0136395
SB10 control Unclassified_Bacteria 0.0091970
SB11 patient Unclassified_Bacteria 0.0080357
SB12 control Unclassified_Bacteria 0.0305158
SB13 control Unclassified_Bacteria 0.0118838
SB14 control Unclassified_Bacteria 0.0028365
SB15 control Unclassified_Bacteria 0.0168919
SB16 patient Unclassified_Bacteria 0.0148945
SB17 patient Unclassified_Bacteria 0.0038585
SB18 patient Unclassified_Bacteria 0.0036576
SB19 control Unclassified_Bacteria 0.0155011
SB21 control Unclassified_Bacteria 0.0421091
SB22 patient Unclassified_Bacteria 0.0069098
SB23 patient Unclassified_Bacteria 0.0022862
SB24 control Unclassified_Bacteria 0.0174986
SB25 control Unclassified_Bacteria 0.0049020
SB26 control Unclassified_Bacteria 0.0163846
SB28 patient Unclassified_Bacteria 0.0007868
SB29 patient Unclassified_Bacteria 0.0025198
SB3 control Unclassified_Bacteria 0.0397927
SB30 patient Unclassified_Bacteria 0.0023218
SB31 control Unclassified_Bacteria 0.0037363
SB32 control Unclassified_Bacteria 0.0069670
SB33 control Unclassified_Bacteria 0.0021247
SB34 patient Unclassified_Bacteria 0.0008659
SB35 patient Unclassified_Bacteria 0.0000000
SB36 patient Unclassified_Bacteria 0.0015221
SB38 patient Unclassified_Bacteria 0.0041887
SB39 patient Unclassified_Bacteria 0.0061192
SB4 patient Unclassified_Bacteria 0.0018089
SB40 control Unclassified_Bacteria 0.0135666
SB41 patient Unclassified_Bacteria 0.0022574
SB42 patient Unclassified_Bacteria 0.0904049
SB43 patient Unclassified_Bacteria 0.0015531
SB44 patient Unclassified_Bacteria 0.0079627
SB45 control Unclassified_Bacteria 0.0052882
SB5 patient Unclassified_Bacteria 0.0032683
SB6 patient Unclassified_Bacteria 0.0218762
SB7 control Unclassified_Bacteria 0.0062982
SB8 patient Unclassified_Bacteria 0.0047083
SB9 patient Unclassified_Bacteria 0.0056797
SB1 control Actinobacteria 0.0027279
SB10 control Actinobacteria 0.0027250
SB11 patient Actinobacteria 0.0008929
SB12 control Actinobacteria 0.1903862
SB13 control Actinobacteria 0.0079225
SB14 control Actinobacteria 0.0024497
SB15 control Actinobacteria 0.0023442
SB16 patient Actinobacteria 0.0016549
SB17 patient Actinobacteria 0.0005145
SB18 patient Actinobacteria 0.0001860
SB19 control Actinobacteria 0.0384006
SB21 control Actinobacteria 0.0080979
SB22 patient Actinobacteria 0.0072937
SB23 patient Actinobacteria 0.0005379
SB24 control Actinobacteria 0.0048766
SB25 control Actinobacteria 0.0031969
SB26 control Actinobacteria 0.0056406
SB28 patient Actinobacteria 0.0000000
SB29 patient Actinobacteria 0.0014399
SB3 control Actinobacteria 0.0176166
SB30 patient Actinobacteria 0.0002019
SB31 control Actinobacteria 0.0076190
SB32 control Actinobacteria 0.0013934
SB33 control Actinobacteria 0.0013208
SB34 patient Actinobacteria 0.0006927
SB35 patient Actinobacteria 0.0004014
SB36 patient Actinobacteria 0.0000000
SB38 patient Actinobacteria 0.0004249
SB39 patient Actinobacteria 0.0215781
SB4 patient Actinobacteria 0.0009044
SB40 control Actinobacteria 0.0007140
SB41 patient Actinobacteria 0.0000000
SB42 patient Actinobacteria 0.0033427
SB43 patient Actinobacteria 0.0002912
SB44 patient Actinobacteria 0.0013729
SB45 control Actinobacteria 0.0000000

(1.2.1.1.9.2.2.2.1.1.1) Widget 75. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data grouped by Sample.type. Click to see HTML widget file in full window: ./1.2.1.1.9.2.2.2.1.1.1-3234df769daDynamic.Pivot.Table.html

(1.2.1.1.9.2.2.2.1.1.1) Widget 76. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data grouped by Sample.type. Click to see HTML widget file in full window: ./1.2.1.1.9.2.2.2.1.1.1-323231bb372Dynamic.Pivot.Table.html

(1.2.1.1.9.2.2.2.1.1.1) Table 75. Summary table. Data grouped by Sample.type. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.2.1.1.9.2.2.2.1.1.1-3232f41cc16.1.2.1.1.9.2.2.2.1.1.csv

feature Sample.type mean sd median incidence
Bacteroidetes control 0.512598 0.240229 0.5358279 0.9444
Bacteroidetes patient 0.741252 0.239831 0.8249907 1.0000
Firmicutes control 0.409038 0.193444 0.4178722 1.0000
Firmicutes patient 0.206254 0.217170 0.1345940 1.0000
Proteobacteria control 0.042186 0.073657 0.0151444 1.0000
Proteobacteria patient 0.030060 0.057131 0.0122841 0.9565
Unclassified_Bacteria control 0.014396 0.011932 0.0127252 1.0000
Unclassified_Bacteria patient 0.008586 0.018505 0.0036576 0.9565
Actinobacteria control 0.016544 0.044317 0.0029624 0.9444
Actinobacteria patient 0.003082 0.006580 0.0007416 0.8696
Verrucomicrobia control 0.003447 0.006657 0.0000000 0.3889
Verrucomicrobia patient 0.010557 0.036854 0.0000000 0.3478

(1.2.1.1.9.2.2.2.1.1.1) Figure 240. Abundance. Data grouped by Sample.type. bar_stacked plot. Image file: plots/32314e29fa9.svg.

(1.2.1.1.9.2.2.2.1.1.1) Figure 241. Abundance. Data grouped by Sample.type. bar (sample mean) plot. Image file: plots/323631e0059.svg.

(1.2.1.1.9.2.2.2.1.1.1) Figure 242. Abundance. Data grouped by Sample.type. violin plot. Image file: plots/3236b230046.svg.

(1.2.1.1.9.2.2.2.1.1.1) Figure 243. Abundance. Data grouped by Sample.type. boxplot plot. Image file: plots/3235908a5fb.svg.

(1.2.1.1.9.2.2.2.1.2) Abundance. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.2.1.1.9.2.2.2.1.2.1) Figure 244. Abundance. Data grouped by Sample.type. bar (sample mean) plot. Image file: plots/3231289eeef.svg.

(1.2.1.1.9.2.2.2.1.2.1) Figure 245. Abundance. Data grouped by Sample.type. violin plot. Image file: plots/323771eae10.svg.

(1.2.1.1.9.2.2.2.1.2.1) Figure 246. Abundance. Data grouped by Sample.type. boxplot plot. Image file: plots/32369ab7ebb.svg.

(1.2.1.1.9.2.2.2.2) dodged plots. Iterating over orientation and, optionally, scaling
(1.2.1.1.9.2.2.2.2.1) Abundance. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.2.1.1.9.2.2.2.2.1.1) Figure 247. Abundance. Data grouped by Sample.type. bar (sample mean) plot. Image file: plots/323501099d5.svg.

(1.2.1.1.9.2.2.2.2.1.1) Figure 248. Abundance. Data grouped by Sample.type. violin plot. Image file: plots/3234d4fffc6.svg.

(1.2.1.1.9.2.2.2.2.1.1) Figure 249. Abundance. Data grouped by Sample.type. boxplot plot. Image file: plots/32358885b98.svg.

(1.2.1.1.9.2.2.2.2.2) Abundance. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.2.1.1.9.2.2.2.2.2.1) Figure 250. Abundance. Data grouped by Sample.type. bar (sample mean) plot. Image file: plots/323550fc72f.svg.

(1.2.1.1.9.2.2.2.2.2.1) Figure 251. Abundance. Data grouped by Sample.type. violin plot. Image file: plots/3235294e288.svg.

(1.2.1.1.9.2.2.2.2.2.1) Figure 252. Abundance. Data grouped by Sample.type. boxplot plot. Image file: plots/323541518db.svg.

(1.2.1.1.9.2.3) Grouping variables Sample.type,age.quant
(1.2.1.1.9.2.4) Iterating over Abundance. profile sorting order
(1.2.1.1.9.2.4.1) Abundance. profile sorting order: average abundance
(1.2.1.1.9.2.4.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.2.1.1.9.2.4.2.1) faceted plots. Iterating over orientation and, optionally, scaling
(1.2.1.1.9.2.4.2.1.1) Abundance. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.2.1.1.9.2.4.2.1.1.0) Table 76. Data table used for plots. Data grouped by Sample.type,age.quant. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.2.1.1.9.2.4.2.1.1.0-3237d986d25.1.2.1.1.9.2.4.2.1.1.csv

.record.id Sample.type age.quant feature Abundance
SB1 control (8.71,15.3] Bacteroidetes 0.6847011
SB10 control (15.3,26.4] Bacteroidetes 0.5636549
SB11 patient (8.71,15.3] Bacteroidetes 0.7549107
SB12 control [3.18,6.27] Bacteroidetes 0.0000000
SB13 control (6.27,8.71] Bacteroidetes 0.2200704
SB14 control (8.71,15.3] Bacteroidetes 0.7867457
SB15 control (8.71,15.3] Bacteroidetes 0.5339906
SB16 patient (15.3,26.4] Bacteroidetes 0.8191974
SB17 patient (15.3,26.4] Bacteroidetes 0.8667524
SB18 patient (15.3,26.4] Bacteroidetes 0.8869878
SB19 control (15.3,26.4] Bacteroidetes 0.2319887
SB21 control [3.18,6.27] Bacteroidetes 0.1707756
SB22 patient (6.27,8.71] Bacteroidetes 0.6115163
SB23 patient (15.3,26.4] Bacteroidetes 0.7781065
SB24 control (8.71,15.3] Bacteroidetes 0.7198795
SB25 control (8.71,15.3] Bacteroidetes 0.6155158
SB26 control (6.27,8.71] Bacteroidetes 0.5052377
SB28 patient (6.27,8.71] Bacteroidetes 0.6904013
SB29 patient (6.27,8.71] Bacteroidetes 0.9046076
SB3 control [3.18,6.27] Bacteroidetes 0.4111917
SB30 patient (6.27,8.71] Bacteroidetes 0.8563497
SB31 control (8.71,15.3] Bacteroidetes 0.6462271
SB32 control (15.3,26.4] Bacteroidetes 0.4116736
SB33 control (8.71,15.3] Bacteroidetes 0.8226714
SB34 patient (15.3,26.4] Bacteroidetes 0.7837908
SB35 patient (8.71,15.3] Bacteroidetes 0.9714974
SB36 patient [3.18,6.27] Bacteroidetes 0.8668189
SB38 patient (15.3,26.4] Bacteroidetes 0.9344382
SB39 patient (8.71,15.3] Bacteroidetes 0.5561997
SB4 patient [3.18,6.27] Bacteroidetes 0.9321676
SB40 control [3.18,6.27] Bacteroidetes 0.5376651
SB41 patient (6.27,8.71] Bacteroidetes 0.9297539
SB42 patient [3.18,6.27] Bacteroidetes 0.6381524
SB43 patient (15.3,26.4] Bacteroidetes 0.8861386
SB44 patient [3.18,6.27] Bacteroidetes 0.8253707
SB45 control (15.3,26.4] Bacteroidetes 0.8860391
SB5 patient (15.3,26.4] Bacteroidetes 0.0982678
SB6 patient (6.27,8.71] Bacteroidetes 0.8249907
SB7 control (15.3,26.4] Bacteroidetes 0.4787347
SB8 patient (15.3,26.4] Bacteroidetes 0.5680175
SB9 patient (8.71,15.3] Bacteroidetes 0.0643696
SB1 control (8.71,15.3] Firmicutes 0.1777677
SB10 control (15.3,26.4] Firmicutes 0.3690709
SB11 patient (8.71,15.3] Firmicutes 0.2004464
SB12 control [3.18,6.27] Firmicutes 0.4655685
SB13 control (6.27,8.71] Firmicutes 0.6870599
SB14 control (8.71,15.3] Firmicutes 0.1964930
SB15 control (8.71,15.3] Firmicutes 0.4376724
SB16 patient (15.3,26.4] Firmicutes 0.1419115
SB17 patient (15.3,26.4] Firmicutes 0.0873312
SB18 patient (15.3,26.4] Firmicutes 0.1035274
SB19 control (15.3,26.4] Firmicutes 0.7000176
SB21 control [3.18,6.27] Firmicutes 0.7545438
SB22 patient (6.27,8.71] Firmicutes 0.3619962
SB23 patient (15.3,26.4] Firmicutes 0.2169177
SB24 control (8.71,15.3] Firmicutes 0.2306368
SB25 control (8.71,15.3] Firmicutes 0.3429241
SB26 control (6.27,8.71] Firmicutes 0.4700510
SB28 patient (6.27,8.71] Firmicutes 0.0664831
SB29 patient (6.27,8.71] Firmicutes 0.0910727
SB3 control [3.18,6.27] Firmicutes 0.5150259
SB30 patient (6.27,8.71] Firmicutes 0.1129618
SB31 control (8.71,15.3] Firmicutes 0.3329670
SB32 control (15.3,26.4] Firmicutes 0.5380090
SB33 control (8.71,15.3] Firmicutes 0.1656713
SB34 patient (15.3,26.4] Firmicutes 0.1926574
SB35 patient (8.71,15.3] Firmicutes 0.0272983
SB36 patient [3.18,6.27] Firmicutes 0.0711568
SB38 patient (15.3,26.4] Firmicutes 0.0457112
SB39 patient (8.71,15.3] Firmicutes 0.2222222
SB4 patient [3.18,6.27] Firmicutes 0.0630087
SB40 control [3.18,6.27] Firmicutes 0.3980721
SB41 patient (6.27,8.71] Firmicutes 0.0667050
SB42 patient [3.18,6.27] Firmicutes 0.2489554
SB43 patient (15.3,26.4] Firmicutes 0.0789167
SB44 patient [3.18,6.27] Firmicutes 0.1639209
SB45 control (15.3,26.4] Firmicutes 0.0789706
SB5 patient (15.3,26.4] Firmicutes 0.7350474
SB6 patient (6.27,8.71] Firmicutes 0.1345940
SB7 control (15.3,26.4] Firmicutes 0.5021584
SB8 patient (15.3,26.4] Firmicutes 0.4124769
SB9 patient (8.71,15.3] Firmicutes 0.8985233
SB1 control (8.71,15.3] Proteobacteria 0.1211639
SB10 control (15.3,26.4] Proteobacteria 0.0544154
SB11 patient (8.71,15.3] Proteobacteria 0.0049107
SB12 control [3.18,6.27] Proteobacteria 0.3135296
SB13 control (6.27,8.71] Proteobacteria 0.0642606
SB14 control (8.71,15.3] Proteobacteria 0.0110882
SB15 control (8.71,15.3] Proteobacteria 0.0053778
SB16 patient (15.3,26.4] Proteobacteria 0.0223417
SB17 patient (15.3,26.4] Proteobacteria 0.0415434
SB18 patient (15.3,26.4] Proteobacteria 0.0056413
SB19 control (15.3,26.4] Proteobacteria 0.0139158
SB21 control [3.18,6.27] Proteobacteria 0.0190750
SB22 patient (6.27,8.71] Proteobacteria 0.0122841
SB23 patient (15.3,26.4] Proteobacteria 0.0021517
SB24 control (8.71,15.3] Proteobacteria 0.0196500
SB25 control (8.71,15.3] Proteobacteria 0.0110827
SB26 control (6.27,8.71] Proteobacteria 0.0021488
SB28 patient (6.27,8.71] Proteobacteria 0.2423289
SB29 patient (6.27,8.71] Proteobacteria 0.0003600
SB3 control [3.18,6.27] Proteobacteria 0.0163731
SB30 patient (6.27,8.71] Proteobacteria 0.0002524
SB31 control (8.71,15.3] Proteobacteria 0.0093773
SB32 control (15.3,26.4] Proteobacteria 0.0410280
SB33 control (8.71,15.3] Proteobacteria 0.0081544
SB34 patient (15.3,26.4] Proteobacteria 0.0219067
SB35 patient (8.71,15.3] Proteobacteria 0.0000000
SB36 patient [3.18,6.27] Proteobacteria 0.0605023
SB38 patient (15.3,26.4] Proteobacteria 0.0151156
SB39 patient (8.71,15.3] Proteobacteria 0.0186795
SB4 patient [3.18,6.27] Proteobacteria 0.0021103
SB40 control [3.18,6.27] Proteobacteria 0.0232060
SB41 patient (6.27,8.71] Proteobacteria 0.0011951
SB42 patient [3.18,6.27] Proteobacteria 0.0173972
SB43 patient (15.3,26.4] Proteobacteria 0.0329062
SB44 patient [3.18,6.27] Proteobacteria 0.0013729
SB45 control (15.3,26.4] Proteobacteria 0.0130442
SB5 patient (15.3,26.4] Proteobacteria 0.1580782
SB6 patient (6.27,8.71] Proteobacteria 0.0107527
SB7 control (15.3,26.4] Proteobacteria 0.0124549
SB8 patient (15.3,26.4] Proteobacteria 0.0131159
SB9 patient (8.71,15.3] Proteobacteria 0.0064370
SB1 control (8.71,15.3] Unclassified_Bacteria 0.0136395
SB10 control (15.3,26.4] Unclassified_Bacteria 0.0091970
SB11 patient (8.71,15.3] Unclassified_Bacteria 0.0080357
SB12 control [3.18,6.27] Unclassified_Bacteria 0.0305158
SB13 control (6.27,8.71] Unclassified_Bacteria 0.0118838
SB14 control (8.71,15.3] Unclassified_Bacteria 0.0028365
SB15 control (8.71,15.3] Unclassified_Bacteria 0.0168919
SB16 patient (15.3,26.4] Unclassified_Bacteria 0.0148945
SB17 patient (15.3,26.4] Unclassified_Bacteria 0.0038585
SB18 patient (15.3,26.4] Unclassified_Bacteria 0.0036576
SB19 control (15.3,26.4] Unclassified_Bacteria 0.0155011
SB21 control [3.18,6.27] Unclassified_Bacteria 0.0421091
SB22 patient (6.27,8.71] Unclassified_Bacteria 0.0069098
SB23 patient (15.3,26.4] Unclassified_Bacteria 0.0022862
SB24 control (8.71,15.3] Unclassified_Bacteria 0.0174986
SB25 control (8.71,15.3] Unclassified_Bacteria 0.0049020
SB26 control (6.27,8.71] Unclassified_Bacteria 0.0163846
SB28 patient (6.27,8.71] Unclassified_Bacteria 0.0007868
SB29 patient (6.27,8.71] Unclassified_Bacteria 0.0025198
SB3 control [3.18,6.27] Unclassified_Bacteria 0.0397927
SB30 patient (6.27,8.71] Unclassified_Bacteria 0.0023218
SB31 control (8.71,15.3] Unclassified_Bacteria 0.0037363
SB32 control (15.3,26.4] Unclassified_Bacteria 0.0069670
SB33 control (8.71,15.3] Unclassified_Bacteria 0.0021247
SB34 patient (15.3,26.4] Unclassified_Bacteria 0.0008659
SB35 patient (8.71,15.3] Unclassified_Bacteria 0.0000000
SB36 patient [3.18,6.27] Unclassified_Bacteria 0.0015221
SB38 patient (15.3,26.4] Unclassified_Bacteria 0.0041887
SB39 patient (8.71,15.3] Unclassified_Bacteria 0.0061192
SB4 patient [3.18,6.27] Unclassified_Bacteria 0.0018089
SB40 control [3.18,6.27] Unclassified_Bacteria 0.0135666
SB41 patient (6.27,8.71] Unclassified_Bacteria 0.0022574
SB42 patient [3.18,6.27] Unclassified_Bacteria 0.0904049
SB43 patient (15.3,26.4] Unclassified_Bacteria 0.0015531
SB44 patient [3.18,6.27] Unclassified_Bacteria 0.0079627
SB45 control (15.3,26.4] Unclassified_Bacteria 0.0052882
SB5 patient (15.3,26.4] Unclassified_Bacteria 0.0032683
SB6 patient (6.27,8.71] Unclassified_Bacteria 0.0218762
SB7 control (15.3,26.4] Unclassified_Bacteria 0.0062982
SB8 patient (15.3,26.4] Unclassified_Bacteria 0.0047083
SB9 patient (8.71,15.3] Unclassified_Bacteria 0.0056797
SB1 control (8.71,15.3] Actinobacteria 0.0027279
SB10 control (15.3,26.4] Actinobacteria 0.0027250
SB11 patient (8.71,15.3] Actinobacteria 0.0008929
SB12 control [3.18,6.27] Actinobacteria 0.1903862
SB13 control (6.27,8.71] Actinobacteria 0.0079225
SB14 control (8.71,15.3] Actinobacteria 0.0024497
SB15 control (8.71,15.3] Actinobacteria 0.0023442
SB16 patient (15.3,26.4] Actinobacteria 0.0016549
SB17 patient (15.3,26.4] Actinobacteria 0.0005145
SB18 patient (15.3,26.4] Actinobacteria 0.0001860
SB19 control (15.3,26.4] Actinobacteria 0.0384006
SB21 control [3.18,6.27] Actinobacteria 0.0080979
SB22 patient (6.27,8.71] Actinobacteria 0.0072937
SB23 patient (15.3,26.4] Actinobacteria 0.0005379
SB24 control (8.71,15.3] Actinobacteria 0.0048766
SB25 control (8.71,15.3] Actinobacteria 0.0031969
SB26 control (6.27,8.71] Actinobacteria 0.0056406
SB28 patient (6.27,8.71] Actinobacteria 0.0000000
SB29 patient (6.27,8.71] Actinobacteria 0.0014399
SB3 control [3.18,6.27] Actinobacteria 0.0176166
SB30 patient (6.27,8.71] Actinobacteria 0.0002019
SB31 control (8.71,15.3] Actinobacteria 0.0076190
SB32 control (15.3,26.4] Actinobacteria 0.0013934
SB33 control (8.71,15.3] Actinobacteria 0.0013208
SB34 patient (15.3,26.4] Actinobacteria 0.0006927
SB35 patient (8.71,15.3] Actinobacteria 0.0004014
SB36 patient [3.18,6.27] Actinobacteria 0.0000000
SB38 patient (15.3,26.4] Actinobacteria 0.0004249
SB39 patient (8.71,15.3] Actinobacteria 0.0215781
SB4 patient [3.18,6.27] Actinobacteria 0.0009044
SB40 control [3.18,6.27] Actinobacteria 0.0007140
SB41 patient (6.27,8.71] Actinobacteria 0.0000000
SB42 patient [3.18,6.27] Actinobacteria 0.0033427
SB43 patient (15.3,26.4] Actinobacteria 0.0002912
SB44 patient [3.18,6.27] Actinobacteria 0.0013729
SB45 control (15.3,26.4] Actinobacteria 0.0000000

(1.2.1.1.9.2.4.2.1.1.1) Widget 77. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data grouped by Sample.type,age.quant. Click to see HTML widget file in full window: ./1.2.1.1.9.2.4.2.1.1.1-3234e4bf3e5Dynamic.Pivot.Table.html

(1.2.1.1.9.2.4.2.1.1.1) Widget 78. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data grouped by Sample.type,age.quant. Click to see HTML widget file in full window: ./1.2.1.1.9.2.4.2.1.1.1-3233414b64Dynamic.Pivot.Table.html

(1.2.1.1.9.2.4.2.1.1.1) Table 77. Summary table. Data grouped by Sample.type,age.quant. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.2.1.1.9.2.4.2.1.1.1-323528e032b.1.2.1.1.9.2.4.2.1.1.csv

feature Sample.type age.quant mean sd median incidence
Bacteroidetes control [3.18,6.27] 2.799e-01 2.408e-01 2.910e-01 0.7500
Bacteroidetes control (6.27,8.71] 3.627e-01 2.016e-01 3.627e-01 1.0000
Bacteroidetes control (8.71,15.3] 6.871e-01 9.969e-02 6.847e-01 1.0000
Bacteroidetes control (15.3,26.4] 5.144e-01 2.409e-01 4.787e-01 1.0000
Bacteroidetes patient [3.18,6.27] 8.156e-01 1.262e-01 8.461e-01 1.0000
Bacteroidetes patient (6.27,8.71] 8.029e-01 1.257e-01 8.407e-01 1.0000
Bacteroidetes patient (8.71,15.3] 5.867e-01 3.874e-01 6.556e-01 1.0000
Bacteroidetes patient (15.3,26.4] 7.357e-01 2.617e-01 8.192e-01 1.0000
Firmicutes control [3.18,6.27] 5.333e-01 1.551e-01 4.903e-01 1.0000
Firmicutes control (6.27,8.71] 5.786e-01 1.534e-01 5.786e-01 1.0000
Firmicutes control (8.71,15.3] 2.692e-01 1.031e-01 2.306e-01 1.0000
Firmicutes control (15.3,26.4] 4.376e-01 2.326e-01 5.022e-01 1.0000
Firmicutes patient [3.18,6.27] 1.368e-01 8.769e-02 1.175e-01 1.0000
Firmicutes patient (6.27,8.71] 1.390e-01 1.124e-01 1.020e-01 1.0000
Firmicutes patient (8.71,15.3] 3.371e-01 3.843e-01 2.113e-01 1.0000
Firmicutes patient (15.3,26.4] 2.238e-01 2.209e-01 1.419e-01 1.0000
Proteobacteria control [3.18,6.27] 9.305e-02 1.470e-01 2.114e-02 1.0000
Proteobacteria control (6.27,8.71] 3.320e-02 4.392e-02 3.320e-02 1.0000
Proteobacteria control (8.71,15.3] 2.656e-02 4.195e-02 1.108e-02 1.0000
Proteobacteria control (15.3,26.4] 2.697e-02 1.953e-02 1.392e-02 1.0000
Proteobacteria patient [3.18,6.27] 2.035e-02 2.777e-02 9.754e-03 1.0000
Proteobacteria patient (6.27,8.71] 4.453e-02 9.705e-02 5.974e-03 1.0000
Proteobacteria patient (8.71,15.3] 7.507e-03 7.939e-03 5.674e-03 0.7500
Proteobacteria patient (15.3,26.4] 3.476e-02 4.788e-02 2.191e-02 1.0000
Unclassified_Bacteria control [3.18,6.27] 3.150e-02 1.296e-02 3.515e-02 1.0000
Unclassified_Bacteria control (6.27,8.71] 1.413e-02 3.183e-03 1.413e-02 1.0000
Unclassified_Bacteria control (8.71,15.3] 8.804e-03 6.898e-03 4.902e-03 1.0000
Unclassified_Bacteria control (15.3,26.4] 8.650e-03 4.090e-03 6.967e-03 1.0000
Unclassified_Bacteria patient [3.18,6.27] 2.542e-02 4.342e-02 4.886e-03 1.0000
Unclassified_Bacteria patient (6.27,8.71] 6.112e-03 7.995e-03 2.421e-03 1.0000
Unclassified_Bacteria patient (8.71,15.3] 4.959e-03 3.460e-03 5.899e-03 0.7500
Unclassified_Bacteria patient (15.3,26.4] 4.365e-03 4.145e-03 3.658e-03 1.0000
Actinobacteria control [3.18,6.27] 5.420e-02 9.105e-02 1.286e-02 1.0000
Actinobacteria control (6.27,8.71] 6.782e-03 1.614e-03 6.782e-03 1.0000
Actinobacteria control (8.71,15.3] 3.505e-03 2.111e-03 2.728e-03 1.0000
Actinobacteria control (15.3,26.4] 8.575e-03 1.671e-02 1.393e-03 0.8000
Actinobacteria patient [3.18,6.27] 1.405e-03 1.412e-03 1.139e-03 0.7500
Actinobacteria patient (6.27,8.71] 1.613e-03 2.837e-03 4.717e-04 0.6667
Actinobacteria patient (8.71,15.3] 1.197e-02 1.315e-02 1.124e-02 1.0000
Actinobacteria patient (15.3,26.4] 8.575e-04 6.661e-04 5.379e-04 1.0000
Verrucomicrobia control [3.18,6.27] 5.723e-03 8.249e-03 2.699e-03 0.5000
Verrucomicrobia control (6.27,8.71] 4.536e-03 6.035e-03 4.536e-03 1.0000
Verrucomicrobia control (8.71,15.3] 4.297e-03 8.418e-03 0.000e+00 0.4286
Verrucomicrobia control (15.3,26.4] 0.000e+00 0.000e+00 0.000e+00 0.0000
Verrucomicrobia patient [3.18,6.27] 4.178e-04 8.357e-04 0.000e+00 0.2500
Verrucomicrobia patient (6.27,8.71] 5.779e-03 1.116e-02 4.426e-05 0.5000
Verrucomicrobia patient (8.71,15.3] 5.159e-02 8.361e-02 1.558e-02 0.7500
Verrucomicrobia patient (15.3,26.4] 1.079e-05 3.236e-05 0.000e+00 0.1111

(1.2.1.1.9.2.4.2.1.1.1) Figure 253. Abundance. Data grouped by Sample.type,age.quant. bar_stacked plot. Image file: plots/3235446b703.svg.

(1.2.1.1.9.2.4.2.1.1.1) Figure 254. Abundance. Data grouped by Sample.type,age.quant. bar (sample mean) plot. Image file: plots/3236a5af710.svg.

(1.2.1.1.9.2.4.2.1.1.1) Figure 255. Abundance. Data grouped by Sample.type,age.quant. violin plot. Image file: plots/32336005e39.svg.

(1.2.1.1.9.2.4.2.1.1.1) Figure 256. Abundance. Data grouped by Sample.type,age.quant. boxplot plot. Image file: plots/323157c92e4.svg.

(1.2.1.1.9.2.4.2.1.2) Abundance. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.2.1.1.9.2.4.2.1.2.1) Figure 257. Abundance. Data grouped by Sample.type,age.quant. bar (sample mean) plot. Image file: plots/3231e8ed95.svg.

(1.2.1.1.9.2.4.2.1.2.1) Figure 258. Abundance. Data grouped by Sample.type,age.quant. violin plot. Image file: plots/323164afef1.svg.

(1.2.1.1.9.2.4.2.1.2.1) Figure 259. Abundance. Data grouped by Sample.type,age.quant. boxplot plot. Image file: plots/32353469228.svg.

(1.2.1.1.9.2.4.2.2) dodged plots. Iterating over orientation and, optionally, scaling
(1.2.1.1.9.2.4.2.2.1) Abundance. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.2.1.1.9.2.4.2.2.1.1) Figure 260. Abundance. Data grouped by Sample.type,age.quant. bar (sample mean) plot. Image file: plots/323684ba858.svg.

(1.2.1.1.9.2.4.2.2.1.1) Figure 261. Abundance. Data grouped by Sample.type,age.quant. violin plot. Image file: plots/3236dd2dff4.svg.

(1.2.1.1.9.2.4.2.2.1.1) Figure 262. Abundance. Data grouped by Sample.type,age.quant. boxplot plot. Image file: plots/32368bd2e42.svg.

(1.2.1.1.9.2.4.2.2.2) Abundance. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.2.1.1.9.2.4.2.2.2.1) Figure 263. Abundance. Data grouped by Sample.type,age.quant. bar (sample mean) plot. Image file: plots/323162c1871.svg.

(1.2.1.1.9.2.4.2.2.2.1) Figure 264. Abundance. Data grouped by Sample.type,age.quant. violin plot. Image file: plots/3234d03bf31.svg.

(1.2.1.1.9.2.4.2.2.2.1) Figure 265. Abundance. Data grouped by Sample.type,age.quant. boxplot plot. Image file: plots/323168ae54.svg.

Design: Rapporter Team © 2011-2014 | Backend: pander | License: AGPL3 or OSL | Styled with skeleton